Publication detail

TERTIARY STRUCTURE PREDICTION OF POTENTIAL EFFLUX-PUMP PROTEIN IN CLOSTRIDIUM BEBERINCKII NRRL B-598

KOŠČOVÁ, P. SEDLÁŘ, K. KUPKOVÁ, K. KOLEK, J. PATÁKOVÁ, P. PROVAZNÍK, I.

Original Title

TERTIARY STRUCTURE PREDICTION OF POTENTIAL EFFLUX-PUMP PROTEIN IN CLOSTRIDIUM BEBERINCKII NRRL B-598

Type

conference paper

Language

English

Original Abstract

The fields of computational biochemistry and structural biology are growing rapidly. With various computational tools the whole workflow for in silico modeling of three-dimensional protein structures can be compiled. Here, we present a method for tertiary structure prediction for arcB1, a putative efflux pump gene, recently identified in the genomic sequence of Clostridium beijerinckii NRRL B-598. The strain C. beijerinckii NRRL B-598, formerly misidentified as C. pasteurianum, is an oxygen tolerant heterofermentative anaerobe with the ability of acetone-butanol fermentation, with butanol as the main product. Unfortunately, the mechanism of butanol efflux remains unknown. The translated AcrB1 protein sequence had a high similarity to the already described efflux-pump of Escherichia coli. To study these sequences in a structural context, we constructed a homology model for C. beijerinckii NRRL B-598 and compared it with the corresponding experimentally determined structure from E. coli. The predicted protein model helps us to understand its function and confirm that acrB1 is a gene for nonspecific efflux pump — a potential pump capable of butanol efflux.

Keywords

Clostridium; ABE fermentation; efflux pump

Authors

KOŠČOVÁ, P.; SEDLÁŘ, K.; KUPKOVÁ, K.; KOLEK, J.; PATÁKOVÁ, P.; PROVAZNÍK, I.

Released

31. 10. 2017

Publisher

Ocean Design

Location

Praha

ISBN

978-80-86238-62-3

Book

Proceedings of the 5th International Conference on Chemical Technology

Edition

1

Edition number

1

Pages from

26

Pages to

30

Pages count

5

URL

http://www.icct.cz/AngiologyKlon-ICCT/media/system/ICCT2017-full_papers.pdf

BibTex

@inproceedings{BUT141676,
  author="Pavlína {Cicková} and Karel {Sedlář} and Kristýna {Kupková} and Jan {Kolek} and Petra {Patáková} and Valentine {Provazník}",
  title="TERTIARY STRUCTURE PREDICTION OF POTENTIAL EFFLUX-PUMP PROTEIN IN CLOSTRIDIUM BEBERINCKII NRRL B-598",
  booktitle="Proceedings of the 5th International Conference on Chemical Technology",
  year="2017",
  series="1",
  number="1",
  pages="26--30",
  publisher="Ocean Design",
  address="Praha",
  isbn="978-80-86238-62-3",
  url="http://www.icct.cz/AngiologyKlon-ICCT/media/system/ICCT2017-full_papers.pdf"
}